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Bolaños F, Orlandi JG, Aoki R, Jagadeesh AV, Gardner JL, Benucci A. Efficient coding of natural images in the mouse visual cortex. Nat Commun 2024; 15:2466. [PMID: 38503746 PMCID: PMC10951403 DOI: 10.1038/s41467-024-45919-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Accepted: 02/06/2024] [Indexed: 03/21/2024] Open
Abstract
How the activity of neurons gives rise to natural vision remains a matter of intense investigation. The mid-level visual areas along the ventral stream are selective to a common class of natural images-textures-but a circuit-level understanding of this selectivity and its link to perception remains unclear. We addressed these questions in mice, first showing that they can perceptually discriminate between textures and statistically simpler spectrally matched stimuli, and between texture types. Then, at the neural level, we found that the secondary visual area (LM) exhibited a higher degree of selectivity for textures compared to the primary visual area (V1). Furthermore, textures were represented in distinct neural activity subspaces whose relative distances were found to correlate with the statistical similarity of the images and the mice's ability to discriminate between them. Notably, these dependencies were more pronounced in LM, where the texture-related subspaces were smaller than in V1, resulting in superior stimulus decoding capabilities. Together, our results demonstrate texture vision in mice, finding a linking framework between stimulus statistics, neural representations, and perceptual sensitivity-a distinct hallmark of efficient coding computations.
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Affiliation(s)
- Federico Bolaños
- University of British Columbia, Neuroimaging and NeuroComputation Centre, Vancouver, BC, V6T, Canada
| | - Javier G Orlandi
- University of Calgary, Department of Physics and Astronomy, Calgary, AB, T2N 1N4, Canada.
| | - Ryo Aoki
- RIKEN Center for Brain Science, Laboratory for Neural Circuits and Behavior, Wakoshi, Japan
| | | | - Justin L Gardner
- Stanford University, Wu Tsai Neurosciences Institute, Stanford, CA, USA
| | - Andrea Benucci
- RIKEN Center for Brain Science, Laboratory for Neural Circuits and Behavior, Wakoshi, Japan.
- Queen Mary, University of London, School of Biological and Behavioral Science, London, E1 4NS, UK.
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Yu CH, Yu Y, Adsit LM, Chang JT, Barchini J, Moberly AH, Benisty H, Kim J, Young BK, Heng K, Farinella DM, Leikvoll A, Pavan R, Vistein R, Nanfito BR, Hildebrand DGC, Otero-Coronel S, Vaziri A, Goldberg JL, Ricci AJ, Fitzpatrick D, Cardin JA, Higley MJ, Smith GB, Kara P, Nielsen KJ, Smith IT, Smith SL. The Cousa objective: a long-working distance air objective for multiphoton imaging in vivo. Nat Methods 2024; 21:132-141. [PMID: 38129618 PMCID: PMC10776402 DOI: 10.1038/s41592-023-02098-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 10/23/2023] [Indexed: 12/23/2023]
Abstract
Multiphoton microscopy can resolve fluorescent structures and dynamics deep in scattering tissue and has transformed neural imaging, but applying this technique in vivo can be limited by the mechanical and optical constraints of conventional objectives. Short working distance objectives can collide with compact surgical windows or other instrumentation and preclude imaging. Here we present an ultra-long working distance (20 mm) air objective called the Cousa objective. It is optimized for performance across multiphoton imaging wavelengths, offers a more than 4 mm2 field of view with submicrometer lateral resolution and is compatible with commonly used multiphoton imaging systems. A novel mechanical design, wider than typical microscope objectives, enabled this combination of specifications. We share the full optical prescription, and report performance including in vivo two-photon and three-photon imaging in an array of species and preparations, including nonhuman primates. The Cousa objective can enable a range of experiments in neuroscience and beyond.
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Affiliation(s)
- Che-Hang Yu
- Department of Electrical and Computer Engineering, University of California Santa Barbara, Santa Barbara, CA, USA.
| | - Yiyi Yu
- Department of Electrical and Computer Engineering, University of California Santa Barbara, Santa Barbara, CA, USA
| | - Liam M Adsit
- Department of Molecular, Cellular, and Developmental Biology, University of California Santa Barbara, Santa Barbara, CA, USA
| | - Jeremy T Chang
- Max Planck Florida Institute for Neuroscience, Jupiter, FL, USA
| | - Jad Barchini
- Max Planck Florida Institute for Neuroscience, Jupiter, FL, USA
| | | | - Hadas Benisty
- Department of Neuroscience, Yale University, New Haven, CT, USA
| | - Jinkyung Kim
- Department of Otolaryngology, Washington University School of Medicine, St. Louis, MO, USA
| | - Brent K Young
- Spencer Center for Vision Research, Byers Eye Institute, School of Medicine, Stanford University, Palo Alto, CA, USA
| | - Kathleen Heng
- Spencer Center for Vision Research, Byers Eye Institute, School of Medicine, Stanford University, Palo Alto, CA, USA
- Neurosciences Interdepartmental Program, Stanford University, Stanford, CA, USA
| | - Deano M Farinella
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, USA
| | - Austin Leikvoll
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, USA
| | - Rishaab Pavan
- Department of Biomedical Engineering, University of Minnesota, Minneapolis, MN, USA
| | - Rachel Vistein
- Department of Molecular and Comparative Pathobiology, and Zanvyl Krieger Mind/Brain Institute, Johns Hopkins University, Baltimore, MD, USA
| | - Brandon R Nanfito
- Solomon H. Snyder Department of Neuroscience, and Zanvyl Krieger Mind/Brain Institute, Johns Hopkins University, Baltimore, MD, USA
| | | | - Santiago Otero-Coronel
- Laboratory of Neural Systems, The Rockefeller University, New York, NY, USA
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
- Kavli Neural Systems Institute, The Rockefeller University, New York, NY, USA
| | - Alipasha Vaziri
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
- Kavli Neural Systems Institute, The Rockefeller University, New York, NY, USA
| | - Jeffrey L Goldberg
- Spencer Center for Vision Research, Byers Eye Institute, School of Medicine, Stanford University, Palo Alto, CA, USA
| | - Anthony J Ricci
- Department of Otolaryngology, Stanford University School of Medicine, Stanford University, Stanford, CA, USA
- Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford University, Stanford, CA, USA
| | | | | | | | - Gordon B Smith
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, USA
| | - Prakash Kara
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, USA
| | - Kristina J Nielsen
- Solomon H. Snyder Department of Neuroscience, and Zanvyl Krieger Mind/Brain Institute, Johns Hopkins University, Baltimore, MD, USA
| | - Ikuko T Smith
- Department of Molecular, Cellular, and Developmental Biology, University of California Santa Barbara, Santa Barbara, CA, USA
- Department of Psychology and Brain Sciences, University of California Santa Barbara, Santa Barbara, CA, USA
- Neuroscience Research Institute, University of California Santa Barbara, Santa Barbara, CA, USA
| | - Spencer LaVere Smith
- Department of Electrical and Computer Engineering, University of California Santa Barbara, Santa Barbara, CA, USA.
- Department of Psychology and Brain Sciences, University of California Santa Barbara, Santa Barbara, CA, USA.
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Zhou ZC, Gordon-Fennell A, Piantadosi SC, Ji N, Smith SL, Bruchas MR, Stuber GD. Deep-brain optical recording of neural dynamics during behavior. Neuron 2023; 111:3716-3738. [PMID: 37804833 PMCID: PMC10843303 DOI: 10.1016/j.neuron.2023.09.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2023] [Revised: 08/24/2023] [Accepted: 09/06/2023] [Indexed: 10/09/2023]
Abstract
In vivo fluorescence recording techniques have produced landmark discoveries in neuroscience, providing insight into how single cell and circuit-level computations mediate sensory processing and generate complex behaviors. While much attention has been given to recording from cortical brain regions, deep-brain fluorescence recording is more complex because it requires additional measures to gain optical access to harder to reach brain nuclei. Here we discuss detailed considerations and tradeoffs regarding deep-brain fluorescence recording techniques and provide a comprehensive guide for all major steps involved, from project planning to data analysis. The goal is to impart guidance for new and experienced investigators seeking to use in vivo deep fluorescence optical recordings in awake, behaving rodent models.
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Affiliation(s)
- Zhe Charles Zhou
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA
| | - Adam Gordon-Fennell
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA
| | - Sean C Piantadosi
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA
| | - Na Ji
- Department of Physics, University of California, Berkeley, Berkeley, CA 94720, USA; Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Helen Wills Neuroscience Institute, University of California, Berkeley, Berkeley, CA 94720, USA; Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Spencer LaVere Smith
- Department of Electrical and Computer Engineering, University of California Santa Barbara, Santa Barbara, CA 93106, USA
| | - Michael R Bruchas
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA; Department of Pharmacology, University of Washington, Seattle, WA 98195, USA; Department of Bioengineering, University of Washington, Seattle, WA 98195, USA.
| | - Garret D Stuber
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA; Department of Pharmacology, University of Washington, Seattle, WA 98195, USA.
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